Inediibacterium massiliense gen. nov., sp. nov., a new bacterial species isolated from the gut microbiota of a severely malnourished infant

  • Maryam Tidjani Alou
  • Jaishriram Rathored
  • Caroline Michelle
  • Gregory Dubourg
  • Claudia Andrieu
  • Nicholas Armstrong
  • Cheikh Sokhna
  • Aldiouma Diallo
  • Didier Raoult
  • Pierre-Edouard Fournier
Original Article

DOI: 10.1007/s10482-017-0843-5

Cite this article as:
Alou, M.T., Rathored, J., Michelle, C. et al. Antonie van Leeuwenhoek (2017). doi:10.1007/s10482-017-0843-5

Abstract

A novel strain, Mt12T (=CSUR P1907 = DSM 100590), was isolated from the fecal sample of a 7-month-old girl from Senegal afflicted with severe acute malnutrition. This bacterium is a strictly anaerobic, spore-forming Gram-stain positive bacillus. The major cellular fatty acid was identified as tetradecanoic acid. Its 16S rRNA gene sequence exhibited 94.9% similarity with that of Crassaminicella profunda strain Ra1766HT, currently the closest species with a validly published name. The draft genome of strain Mt12T is 3,497,275-bp long with a 30.45% of G+C content. 3397 genes were predicted, including 3268 protein-coding genes and 129 RNAs, including eight 16S rRNAs. Genomic comparison with closely related species with an available genome showed a lower quantitative genomic content. The phylogenetic analysis alongside the dDDH values under 30% and phenotypic characteristics suggest that strain Mt12T represents a new genus within the family Clostridiaceae, for which the name Inediibacterium massiliense gen. nov., sp. nov. is proposed.

Keywords

Inediibacterium massilienseGut microbiotaTaxonogenomicsCulturomicsGenome

Abbreviations

AGIOS

Average of genomic identity of orthologous gene sequences

bp

Base pairs

COG

Clusters of orthologous groups

CSUR

Collection de souches de l’Unité des Rickettsies

DDH

DNA–DNA hybridization

DSM

Deutsche Sammlung von Mikroorganismen

FAME

Fatty acid methyl ester

GC/MS

Gas chromatography/mass spectrometry

kb

Kilobases

MALDI-TOF MS

Matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry

ORF

Open reading frame

TE buffer

Tris-EDTA buffer

SDS

Sodium dodecyl sulfate

URMITE

Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergent

Supplementary material

10482_2017_843_MOESM1_ESM.tif (4.2 mb)
Supplementary Fig. 1Gram staining of Inediibacterium massiliense strain Mt12T (TIFF 4273 kb)
10482_2017_843_MOESM2_ESM.docx (12 kb)
Supplementary Table 1 (DOCX 12 kb)

Copyright information

© Springer International Publishing Switzerland 2017

Authors and Affiliations

  • Maryam Tidjani Alou
    • 1
  • Jaishriram Rathored
    • 1
  • Caroline Michelle
    • 1
  • Gregory Dubourg
    • 1
  • Claudia Andrieu
    • 1
  • Nicholas Armstrong
    • 1
  • Cheikh Sokhna
    • 2
    • 3
  • Aldiouma Diallo
    • 2
    • 3
  • Didier Raoult
    • 1
    • 4
  • Pierre-Edouard Fournier
    • 1
  1. 1.URMITE, Aix Marseille Université, UM63, CNRS 7278, IRD 198, INSERM 1095, IHU - Méditerranée InfectionMarseilleFrance
  2. 2.Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes IRD 198, CNRS 7278, Aix-Marseille UniversitéMarseilleFrance
  3. 3.Campus Commun UCAD-IRD of HannDakarSenegal
  4. 4.Special Infectious Agents Unit, King Fahd Medical Research CenterKing Abdulaziz UniversityJeddahSaudi Arabia